Hello ZhiYun Guo, You are correct, all of the original ChIP fragments were not mapped. This is described in the track description.
Specifically: Display Conventions and Configuration In the graphical display, PET sequences are shown as two blocks, representing the ends of the pair, connected by a thin arrowed line. Overlapping PET clusters (PET fragments that overlap one another) originating from the ChIP enrichment process define the genomic loci that are potential transcription factor binding sites (TFBSs). *PET singletons, from non-specific ChIP fragments that did not cluster, are not shown.* Reading the entire experimental methods may be helpful. You can do this by clicking on the track name from within the Genome Viewer. Thanks! Jennifer --------------------------------- Jennifer Jackson UCSC Genome Informatics Group http://genome.ucsc.edu/ On 4/18/10 7:47 PM, 郭志云 wrote: > hi, > I download the GIS ChIP-PET track of hg18, but the fragment number not > consistent with the list of below:FactorFragmentsCell lineTreatment > p5365,572HCT1166hrs 5-fluorouracil (5FU) > STAT1263,901HeLanone > STAT1327,838HeLagamma interferon (gIFN) > c-Myc273,566P493 B cell with tetracycline-repressible c-Myc transgenenone > H3K4me3679,752Embryonic stem cell hes3none > H3K27me3992,509Embryonic stem cell hes3none > > > For example, I download the 65509 p53 ChIP-PET fragments, not consistent with > the list number: 65572 fragments. This is the data problem or the list table > problem? > > Thank you! > ZhiYun Guo > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
